GgaINT1028044 @ galGal4
Intron Retention
Gene
ENSGALG00000006081 | TMPRSS12
Description
transmembrane (C-terminal) protease, serine 12 [Source:HGNC Symbol;Acc:HGNC:28779]
Coordinates
chrLGE22C19W28_E50C23:133607-134682:+
Coord C1 exon
chrLGE22C19W28_E50C23:133607-133878
Coord A exon
chrLGE22C19W28_E50C23:133879-134539
Coord C2 exon
chrLGE22C19W28_E50C23:134540-134682
Length
661 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
TCTGCTGTCTTCCACTAAAGGCA
3' ss Score
6.76
Exon sequences
Seq C1 exon
GGACCCATATTATTGGAGAGCTGTGCTGGGCACGGATAACCTTTGGAAACACGGCAAACACGCAGCGAAAAGAAGCATCACCCACATCTTTGTGCACCCCGAATTCAACAGGGAGACGTTTGAAAACGACATCGCGTTATTTAAGCTCCATTCTGCTGTGCACTACAGCAATTACATCCAGCCCATCTGCTTACCTCCTGCACACCCTCAGCTGTACACCCACAACAAAACAAAGTGCTTCATCAGCGGCTGGGGACGCATAGCAGAAAAAG
Seq A exon
GTAAACGTTTGTTGAATGCACCATCAGCTCCGGTGCTGAGGTGAGGTTTCAGTCCCTGGGGGTCGCTGTGTTTGCTCGGGTTGTGCTCTCACCCCATAGCATCATTTCACCCTTCTGCAGCTGACGATCTGCTCTCAGTGCTTTTTCCACTGAAAGCAGATTAAGGCTGCCCAGGTGTAACTGAAGGCATCAATGCGTGGCCTTCCTGCCGAGGATAATGCAAGTAAAGGAACAGAAACACAGCTTTCAGGGTCATGATACACTTAAAAGTTCTTCTAAAAGAGCTCTTCTAAAAGAGCTTTTATCTCGAAAAATAACAGCTCTCACAGAGTGCCCTCTCAGCTCAGAGGTCCCCGCTGGTTTCAGGAGAGGCCGCTCTCCCTCAAATTTCCTCTAACTGCATTGAGTGCAGGTGATGCAACCCCAGCTGGCACTGAGCAGGGAGAGGGGATTTGGAGGACAGCTGAAGGCTGCGTGCCATCATCAGTACAGCAGCTGTGCCATTTCCAGTAAGGCTAAGGAGCCGCCCTGTGCCATGGGCAGGCAGACCTCTCTGCTGGCACATGTCTGAACATGTACAAGGGTACCTTTCAGCTAACAAAACAGGAACAGAACAGCAGCCGCAATGCCTGACTTCTCTATCTGCTGTCTTCCACTAAAG
Seq C2 exon
GCAGAACTTCATCTGTGCTGCAAGAGGCAGAAGTGGAAATCATTCCTTCCGATGTCTGTAACGGCTCTGATGCATATGGAGGTCTGATCAATGCCAACATGATCTGTGCTGGCTCTCCATTGGGAGGCGTTGATTCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006081:ENSGALT00000009813:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(38.2=100)
A:
NA
C2:
PF0008921=Trypsin=FE(19.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCAGCGAAAAGAAGCATCAC
R:
AGGAATCAACGCCTCCCAATG
Band lengths:
350-1011
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]